Locus 8347

Sequence ID X_DroMel_CAF1
Location 20,709,117 – 20,709,213
Length 96
Max. P 0.999345
window13707 window13708

overview

Window 7

Location 20,709,117 – 20,709,213
Length 96
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 79.67
Mean single sequence MFE -24.00
Consensus MFE -18.09
Energy contribution -18.43
Covariance contribution 0.34
Combinations/Pair 1.11
Mean z-score -3.80
Structure conservation index 0.75
SVM decision value 3.53
SVM RNA-class probability 0.999345
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20709117 96 + 22224390
GUACAUAUAUAUGUGGUAUUUAUUUGCUUAUGGGAGCUGCAAAUGCCUGCUGCAUUUCUUGAUUUUCUGCUGCUCCAAUAAAUAAAUAAAUACUCA------
.(((((....)))))(((((((((((.((((.(((((.((((((((.....)))))...........))).))))).)))).)))))))))))...------ ( -28.10)
>DroSec_CAF1 16798 102 + 1
UUUCAUGUAUAUGUAAUAUUUAUUUGCUUAUGGGAGCUCCAAGUGCCUGCUGCAUUUCUUGCUUUUUUGCUGCUCCAAUAAAUAAAUAAAUAUUUGUGAGUA
.((((((.......((((((((((((.((((.(((((...((((((.....))))))...((......)).))))).)))).)))))))))))))))))).. ( -25.31)
>DroYak_CAF1 16668 88 + 1
-----UAUAUAUUUGAUAUUUAUUUGCUUAUUGGCGCCCCAAAUGCCUGCUGCAUUCCUUGCUCUU---CUGCUCCAAUAAAUAAAUAAAUACUCA------
-----........(((((((((((((.(((((((.((.......(....).(((.....)))....---..)).))))))).)))))))))).)))------ ( -18.60)
>consensus
_U_CAUAUAUAUGUGAUAUUUAUUUGCUUAUGGGAGCUCCAAAUGCCUGCUGCAUUUCUUGCUUUU_UGCUGCUCCAAUAAAUAAAUAAAUACUCA______
..............((((((((((((.((((.(((((...((((((.....))))))..............))))).)))).))))))))))))........ (-18.09 = -18.43 +   0.34)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 20,709,117 – 20,709,213
Length 96
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 79.67
Mean single sequence MFE -24.47
Consensus MFE -19.80
Energy contribution -19.80
Covariance contribution 0.00
Combinations/Pair 1.11
Mean z-score -3.97
Structure conservation index 0.81
SVM decision value 3.45
SVM RNA-class probability 0.999234
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20709117 96 - 22224390
------UGAGUAUUUAUUUAUUUAUUGGAGCAGCAGAAAAUCAAGAAAUGCAGCAGGCAUUUGCAGCUCCCAUAAGCAAAUAAAUACCACAUAUAUAUGUAC
------.(.((((((((((.(((((.(((((.((.(.....)...((((((.....)))))))).))))).))))).)))))))))))((((....)))).. ( -27.50)
>DroSec_CAF1 16798 102 - 1
UACUCACAAAUAUUUAUUUAUUUAUUGGAGCAGCAAAAAAGCAAGAAAUGCAGCAGGCACUUGGAGCUCCCAUAAGCAAAUAAAUAUUACAUAUACAUGAAA
........(((((((((((.(((((.(((((.((......))......(((.....)))......))))).))))).))))))))))).............. ( -23.50)
>DroYak_CAF1 16668 88 - 1
------UGAGUAUUUAUUUAUUUAUUGGAGCAG---AAGAGCAAGGAAUGCAGCAGGCAUUUGGGGCGCCAAUAAGCAAAUAAAUAUCAAAUAUAUA-----
------(((.(((((((((.((((((((.((.(---.....)...((((((.....))))))...)).)))))))).))))))))))))........----- ( -22.40)
>consensus
______UGAGUAUUUAUUUAUUUAUUGGAGCAGCA_AAAAGCAAGAAAUGCAGCAGGCAUUUGGAGCUCCCAUAAGCAAAUAAAUAUCACAUAUAUAUG_A_
.........((((((((((.(((((.(((((.(........)...((((((.....))))))...))))).))))).))))))))))............... (-19.80 = -19.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:44 2006